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This is the development version of ramr; to use it, please install the devel version of Bioconductor.
Bioconductor version: Development (3.13)
ramr is an R package for detection of low-frequency aberrant methylation events in large datasets obtained by methylation profiling using array or high-throughput bisulfite sequencing. In addition, package provides functions to visualize found aberrantly methylated regions (AMRs), and to generate sets of all possible regions to be used as reference sets for enrichment analysis.
Author: Oleksii Nikolaienko [aut, cre]
Maintainer: Oleksii Nikolaienko <oleksii.nikolaienko at gmail.com>
Citation (from within R,
enter citation("ramr")
):
To install this package, start R (version "4.1") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("ramr")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ramr")
HTML | R Script | ramr |
Reference Manual | ||
Text | NEWS |
biocViews | DNAMethylation, DifferentialMethylation, Epigenetics, MethylSeq, MethylationArray, Software |
Version | 0.99.4 |
In Bioconductor since | BioC 3.13 (R-4.1) |
License | Artistic-2.0 |
Depends | R (>= 4.0), GenomicRanges, parallel, doParallel, foreach, matrixStats, methods |
Imports | BiocGenerics, ggplot2, reshape2, EnvStats, ExtDist, S4Vectors |
LinkingTo | |
Suggests | RUnit, knitr, rmarkdown, gridExtra, annotatr, LOLA, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene |
SystemRequirements | |
Enhances | |
URL | https://github.com/BBCG/ramr |
BugReports | https://github.com/BBCG/ramr/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | ramr_0.99.4.tar.gz |
Windows Binary | ramr_0.99.4.zip |
macOS 10.13 (High Sierra) | ramr_0.99.4.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/ramr |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ramr |
Package Short Url | https://bioconductor.org/packages/ramr/ |
Package Downloads Report | Download Stats |
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